{
    "bcoid": "GLY_000914",
    "title": "Pig Protein Citations (UniProtKB)",
    "description": "The Pig Protein Citations dataset contains publication information for Sus scrofa [taxid:9823] UniProtKB ...",
    "filename_list": "pig_protein_citations_uniprotkb.csv",
    "filename": "pig_protein_citations_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Sus scrofa"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "B8XX90-1...",
                "Pseudorabies..."
            ],
            [
                "B8XX90-1...",
                "Crystal stru..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "title..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "title"
                },
                {
                    "type": "string",
                    "label": "journal_name"
                },
                {
                    "type": "string",
                    "label": "publication_date"
                },
                {
                    "type": "string",
                    "label": "authors"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "src_xref_key"
                },
                {
                    "type": "string",
                    "label": "src_xref_id"
                }
            ],
            [
                "B8XX90-1",
                "Pseudorabies virus tegument protein UL13 recruits RNF5 to inhibit STING-mediated antiviral immunity.",
                "PLoS pathogens",
                "2022 May",
                "Kong Z, Yin H, Wang F, Liu Z, Luan X, Sun L, Liu W, Shang Y",
                "protein_xref_pubmed",
                "35584187",
                "protein_xref_uniprotkb",
                "B8XX90"
            ],
            [
                "B8XX90-1",
                "Crystal structures of porcine STINGCBD-CDN complexes reveal the mechanism of ligand recognition and discrimination of STING proteins.",
                "The Journal of biological chemistry",
                "2019-07-26",
                "Cong Xiaoyan, Yuan Zenglin, Du Yijun, Wu Bo, Lu Defen, Wu Xiangju, Zhang Youjia, Li Feng, Wei Bin, Li Jun, Wu Jiaqiang, Xu Sujuan, Wang Jinbao, Qi Jing, Shang Guijun, Gu Lichuan",
                "protein_xref_pubmed",
                "31167783",
                "protein_xref_uniprotkb",
                "B8XX90"
            ]
        ]
    },
    "readme": "Name\n   - Pig Protein Citations (UniProtKB)\n\nVersion\n   - v-2.11.1\n\nModified on\n   - 2024-05-17T11:24:18.140Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n   - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n   - \n\nUsability Domain\n   - The Pig Protein Citations dataset contains publication information for Sus scrofa [taxid:9823] UniProtKB accessions that includes PMID, journal name, date and author and title. Publications of large scale studies, and high frequency publications pertaining to genome sequencing, cDNA, chromosomes have been filtered out. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen.\n\nDescription Domain\n   Keywords\n   - publications\n   - PMID\n   - journal\n   - citations\n   - authors\n   - UniProtKB\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script loads the UniProtKB publication data from the triplestore containing triples from nt file to retrieve the publication information associated with the UniProtKB accession and maps it to the UniProtKB canonical accessions. The script also filters out publications of large scale studies, and high frequency publications pertaining to DNA sequencing, cDNA, chromosomes using blacklisted PMIDs file.\n\nExecution Domain\n   Scripts   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n   Software Prerequisites\n      Name: Python\n      Version: 2.7.5\n      URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n   Input Subdomain\n      Name: all_blacklisted_pmids.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/compiled/all_blacklisted_pmids.csv\n      Name: pig_protein_function_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/pig_protein_function_uniprotkb.csv\n      Name: pig_protein_ptm_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/pig_protein_ptm_annotation_uniprotkb.csv\n      Name: pig_protein_site_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/pig_protein_site_annotation_uniprotkb.csv\n      Name: uniprot-proteome-sus-scrofa.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_01_31/uniprot-proteome-sus-scrofa.nt\n   Output Subdomain\n      Name: pig_protein_citations_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/pig_protein_citations_uniprotkb.csv\n      Name: pig_protein_citations_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/pig_protein_citations_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"6905\"\n      Name: \"title\"\n     Description: \"Title of the published article in the journal\"\n      Unique Values: \"2130\"\n      Name: \"journal_name\"\n     Description: \"The name of the journal in which the article is published\"\n      Unique Values: \"420\"\n      Name: \"publication_date\"\n     Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n      Unique Values: \"511\"\n      Name: \"authors\"\n     Description: \"NA\"\n      Unique Values: \"2085\"\n      Name: \"xref_key\"\n     Description: \"Source key associated to the  xref_id\"\n      Unique Values: \"1\"\n      Name: \"xref_id\"\n     Description: \"ID of the X-ref\"\n      Unique Values: \"2128\"\n      Name: \"src_xref_key\"\n     Description: \"Source Xref  key\"\n      Unique Values: \"1\"\n      Name: \"src_xref_id\"\n     Description: \"Source X-ref ID\"\n      Unique Values: \"6959\"",
    "downloadurl": "/ln2data/releases/data/v-2.11.1/reviewed/pig_protein_citations_uniprotkb.csv"
}